Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 102

1.

Data standards can boost metabolomics research, and if there is a will, there is a way.

Rocca-Serra P, Salek RM, Arita M, Correa E, Dayalan S, Gonzalez-Beltran A, Ebbels T, Goodacre R, Hastings J, Haug K, Koulman A, Nikolski M, Oresic M, Sansone SA, Schober D, Smith J, Steinbeck C, Viant MR, Neumann S.

Metabolomics. 2016;12:14. doi: 10.1007/s11306-015-0879-3. Epub 2015 Nov 17. Review.

2.

mzML2ISA & nmrML2ISA: generating enriched ISA-Tab metadata files from metabolomics XML data.

Larralde M, Lawson TN, Weber RJM, Moreno P, Haug K, Rocca-Serra P, Viant MR, Steinbeck C, Salek RM.

Bioinformatics. 2017 Aug 15;33(16):2598-2600. doi: 10.1093/bioinformatics/btx169.

3.

linkedISA: semantic representation of ISA-Tab experimental metadata.

González-Beltrán A, Maguire E, Sansone SA, Rocca-Serra P.

BMC Bioinformatics. 2014;15 Suppl 14:S4. doi: 10.1186/1471-2105-15-S14-S4. Epub 2014 Nov 27.

4.

nmrML: A Community Supported Open Data Standard for the Description, Storage, and Exchange of NMR Data.

Schober D, Jacob D, Wilson M, Cruz JA, Marcu A, Grant JR, Moing A, Deborde C, de Figueiredo LF, Haug K, Rocca-Serra P, Easton J, Ebbels TMD, Hao J, Ludwig C, Günther UL, Rosato A, Klein MS, Lewis IA, Luchinat C, Jones AR, Grauslys A, Larralde M, Yokochi M, Kobayashi N, Porzel A, Griffin JL, Viant MR, Wishart DS, Steinbeck C, Salek RM, Neumann S.

Anal Chem. 2018 Jan 2;90(1):649-656. doi: 10.1021/acs.analchem.7b02795. Epub 2017 Dec 14.

5.

Translational Metabolomics of Head Injury: Exploring Dysfunctional Cerebral Metabolism with Ex Vivo NMR Spectroscopy-Based Metabolite Quantification.

Wolahan SM, Hirt D, Glenn TC.

In: Kobeissy FH, editor. Brain Neurotrauma: Molecular, Neuropsychological, and Rehabilitation Aspects. Boca Raton (FL): CRC Press/Taylor & Francis; 2015. Chapter 25.

6.

MetaboLights: An Open-Access Database Repository for Metabolomics Data.

Kale NS, Haug K, Conesa P, Jayseelan K, Moreno P, Rocca-Serra P, Nainala VC, Spicer RA, Williams M, Li X, Salek RM, Griffin JL, Steinbeck C.

Curr Protoc Bioinformatics. 2016 Mar 24;53:14.13.1-18. doi: 10.1002/0471250953.bi1413s53.

PMID:
27010336
7.

MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data.

Haug K, Salek RM, Conesa P, Hastings J, de Matos P, Rijnbeek M, Mahendraker T, Williams M, Neumann S, Rocca-Serra P, Maguire E, González-Beltrán A, Sansone SA, Griffin JL, Steinbeck C.

Nucleic Acids Res. 2013 Jan;41(Database issue):D781-6. doi: 10.1093/nar/gks1004. Epub 2012 Oct 29.

8.

Metabolomics Workbench: An international repository for metabolomics data and metadata, metabolite standards, protocols, tutorials and training, and analysis tools.

Sud M, Fahy E, Cotter D, Azam K, Vadivelu I, Burant C, Edison A, Fiehn O, Higashi R, Nair KS, Sumner S, Subramaniam S.

Nucleic Acids Res. 2016 Jan 4;44(D1):D463-70. doi: 10.1093/nar/gkv1042. Epub 2015 Oct 13.

9.

The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again.

González-Beltrán A, Neumann S, Maguire E, Sansone SA, Rocca-Serra P.

BMC Bioinformatics. 2014;15 Suppl 1:S11. doi: 10.1186/1471-2105-15-S1-S11. Epub 2014 Jan 10.

10.

The MetabolomeExpress Project: enabling web-based processing, analysis and transparent dissemination of GC/MS metabolomics datasets.

Carroll AJ, Badger MR, Harvey Millar A.

BMC Bioinformatics. 2010 Jul 14;11:376. doi: 10.1186/1471-2105-11-376.

11.

The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience.

Griss J, Jones AR, Sachsenberg T, Walzer M, Gatto L, Hartler J, Thallinger GG, Salek RM, Steinbeck C, Neuhauser N, Cox J, Neumann S, Fan J, Reisinger F, Xu QW, Del Toro N, Pérez-Riverol Y, Ghali F, Bandeira N, Xenarios I, Kohlbacher O, Vizcaíno JA, Hermjakob H.

Mol Cell Proteomics. 2014 Oct;13(10):2765-75. doi: 10.1074/mcp.O113.036681. Epub 2014 Jun 30.

12.

Proposed minimum reporting standards for chemical analysis Chemical Analysis Working Group (CAWG) Metabolomics Standards Initiative (MSI).

Sumner LW, Amberg A, Barrett D, Beale MH, Beger R, Daykin CA, Fan TW, Fiehn O, Goodacre R, Griffin JL, Hankemeier T, Hardy N, Harnly J, Higashi R, Kopka J, Lane AN, Lindon JC, Marriott P, Nicholls AW, Reily MD, Thaden JJ, Viant MR.

Metabolomics. 2007 Sep;3(3):211-221.

13.

Compliance with minimum information guidelines in public metabolomics repositories.

Spicer RA, Salek R, Steinbeck C.

Sci Data. 2017 Sep 26;4:170137. doi: 10.1038/sdata.2017.137.

14.

The project data sphere initiative: accelerating cancer research by sharing data.

Green AK, Reeder-Hayes KE, Corty RW, Basch E, Milowsky MI, Dusetzina SB, Bennett AV, Wood WA.

Oncologist. 2015 May;20(5):464-e20. doi: 10.1634/theoncologist.2014-0431. Epub 2015 Apr 15.

15.

ISA-TAB-Nano: a specification for sharing nanomaterial research data in spreadsheet-based format.

Thomas DG, Gaheen S, Harper SL, Fritts M, Klaessig F, Hahn-Dantona E, Paik D, Pan S, Stafford GA, Freund ET, Klemm JD, Baker NA.

BMC Biotechnol. 2013 Jan 14;13:2. doi: 10.1186/1472-6750-13-2.

16.

OMeta: an ontology-based, data-driven metadata tracking system.

Singh I, Kuscuoglu M, Harkins DM, Sutton G, Fouts DE, Nelson KE.

BMC Bioinformatics. 2019 Jan 7;20(1):8. doi: 10.1186/s12859-018-2580-9.

17.

Assessing Public Metabolomics Metadata, Towards Improving Quality.

Ferreira JD, Inácio B, Salek RM, Couto FM.

J Integr Bioinform. 2017 Dec 13;14(4). pii: /j/jib.2017.14.issue-4/jib-2017-0054/jib-2017-0054.xml. doi: 10.1515/jib-2017-0054.

18.

A Python library for FAIRer access and deposition to the Metabolomics Workbench Data Repository.

Smelter A, Moseley HNB.

Metabolomics. 2018;14(5):64. doi: 10.1007/s11306-018-1356-6. Epub 2018 Apr 20.

19.

The CAIRR Pipeline for Submitting Standards-Compliant B and T Cell Receptor Repertoire Sequencing Studies to the National Center for Biotechnology Information Repositories.

Bukhari SAC, O'Connor MJ, Martínez-Romero M, Egyedi AL, Willrett D, Graybeal J, Musen MA, Rubelt F, Cheung KH, Kleinstein SH.

Front Immunol. 2018 Aug 16;9:1877. doi: 10.3389/fimmu.2018.01877. eCollection 2018.

20.

Dissemination of metabolomics results: role of MetaboLights and COSMOS.

Salek RM, Haug K, Steinbeck C.

Gigascience. 2013 May 17;2(1):8. doi: 10.1186/2047-217X-2-8.

Supplemental Content

Support Center